4/18/23
Motivação
Bases de dados
GEO2R
ArrayExpress
TCGA
Medical Physicist (2011-2014);
Master of Science in Biotechnology (2017);
PhD in Biotechnology (2023);
Since 2015 I work focused on bone tissue, especially with cell-biomaterial interaction;
Masters: Kinome;
PhD: Transcriptome/Proteome/Epigenome;
Data to wisdom
Data to conspiracy
Data science vs Bioinformatics.
NIH: “Bioinformatics, as related to genetics and genomics, is a scientific subdiscipline that involves using computer technology to collect, store, analyze and disseminate biological data and information, such as DNA and amino acid sequences or annotations about those sequences.”
Consortiums
These are biological science (Online) libraries, collected from scientific experiments, published literature, high-throughput experiment technology, and computational analysis;
Structured annotations!
Provide access to data programmatically (API);
Data is made freely available under certain licenses;
Microarrays, RNA-Seq, miRNA-Seq, Proteomics (few), CHIP-seq, ATAC-seq, Kinase Array, Single Cell, …
Why you MUST publish your data from high-throughput experiments?
It allows reuse by the scientific community;
LIVES;Peer-review;
Open-data/Open science;
Good practices;
Advancing RNA-Seq analysis, Nature Biotechnology 28:421-423
Marcel Ferreira, PhD (@marceelrf)
https://quartodomarcel.netlify.app/
https://marcel-ferreira.shinyapps.io/SciDashboard_marceelrf/
https://learn.gencore.bio.nyu.edu/rna-seq-analysis/
https://star-protocols.cell.com/protocols/931
https://statquest.org/
https://www.youtube.com/watch?v=tlf6wYJrwKY
https://home.proffernandamaciel.com.br/
Data to wisdom
Data to conspiracy
Data science vs Bioinformatics.
NIH: “Bioinformatics, as related to genetics and genomics, is a scientific subdiscipline that involves using computer technology to collect, store, analyze and disseminate biological data and information, such as DNA and amino acid sequences or annotations about those sequences.”
Advancing RNA-Seq analysis, Nature Biotechnology 28:421-423